Arabidopsis thaliana protein interaction network
Laboratório de Biologia Integrativa e Sistêmica (LaBIS)
Laboratório de Biologia Integrativa e Sistêmica (LaBIS)
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AT1G28560 - ( SRD2 (SHOOT REDIFFERENTIATION DEFECTIVE 2) DNA binding )
2 Proteins interacs with AT1G28560| Locus | Method | FSW  | Cellular Compartment Classification (C3) | Description |
|---|---|---|---|---|
AT3G12280
   | PredictedPhenotypic Enhancementin vitroin vivoAffinity Capture-MS | FSW = 0.0111
| Unknown | RBR1 (RETINOBLASTOMA-RELATED 1) TRANSCRIPTION FACTOR BINDING |
| AT4G08580
| Predictedtwo hybrid | FSW = 0.0863
| Unknown | FUNCTIONS IN MOLECULAR_FUNCTION UNKNOWN INVOLVED IN BIOLOGICAL_PROCESS UNKNOWN LOCATED IN CHLOROPLAST EXPRESSED IN MALE GAMETOPHYTE POLLEN TUBE EXPRESSED DURING L MATURE POLLEN STAGE M GERMINATED POLLEN STAGE CONTAINS INTERPRO DOMAIN/S MICRO-FIBRILLAR-ASSOCIATED 1 C-TERMINAL (INTERPROIPR009730) BEST ARABIDOPSIS THALIANA PROTEIN MATCH IS UNKNOWN PROTEIN (TAIRAT5G179001) HAS 39042 BLAST HITS TO 22601 PROTEINS IN 1140 SPECIES ARCHAE - 179 BACTERIA - 2955 METAZOA - 18595 FUNGI - 3264 PLANTS - 1100 VIRUSES - 245 OTHER EUKARYOTES - 12704 (SOURCE NCBI BLINK) |
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Experimental: This means that the indicated PPI was experimentally demonstrated using Arabidopsis thaliana proteins as model of study. The experiment indicated links to the publication of which this interaction was annotated from
Predicted: The indicated PPI was proposed based on ortholgs studies. The experiment indicated links to the publication of the orthologous PPI was annotated from
FSW
FSW is the Functional Similarity Weight. It represents the proportion of interaction partners that two proteins have in commonLearn more - FSWeight top ranked cut offs
C3
Class A: The PPI is a direct evidence (experimental), the subcellular location was experimentally demonstrated and both, target and source, were indicated as expressed in same cellular compartment
Class B: The PPI is a direct evidence (experimental), the subcellular location was experimentally demonstrated but both, target and source, were indicated as expressed in different cellular compartment
Class C: Same as Class A but the PPI is predicted
Class D: Same as Class A but subcellular location was predicted. P(exp|pred) indicates the probability of this particular predicted location be experimentally demonstrated given all data available on AtPINDB
Unknown: There is no available data to calculate the C3 or the data does not fit onto any class previously described
PEP
PEP is the posterior probability of this particular PPI be experimentally demonstrated once it was predicted. For this release p = 0.0030. If they share same cell compartment p = 0.0029Learn more
How to cite
If you find AtPIN interesting and want to use it in your work please cite usAtPIN: Arabidopsis thaliana Protein Interaction Network
Marcelo M Brandao, Luiza L Dantas and Marcio C Silva-Filho
BMC Bioinformatics 2009, 10:454DOI:1471-2105/10/454
Marcelo M Brandao, Luiza L Dantas and Marcio C Silva-Filho
BMC Bioinformatics 2009, 10:454DOI:1471-2105/10/454
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